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CaP.mod
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CaP.mod
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COMMENT
**************************************************
File generated by: neuroConstruct v1.6.0
**************************************************
This file holds the implementation in NEURON of the Cell Mechanism:
CaP (Type: Channel mechanism, Model: Template based ChannelML file)
with parameters:
/channelml/@units = Physiological Units
/channelml/notes = ChannelML file containing a single Channel from De Schutter and Bower 1998
/channelml/ion/@name = ca
/channelml/ion/@charge = 2
/channelml/ion/@default_erev = 137.52625
/channelml/channel_type/@name = CaP
/channelml/channel_type/@density = yes
/channelml/channel_type/status/@value = stable
/channelml/channel_type/status/comment = Verified equivalence of NEURON and GENESIS mapping to orig NEURON mod impl at 0.02ms dt with current pulse (but 0.002 is better)
/channelml/channel_type/status/comment = Verified equivalence of NEURON and GENESIS mapping to orig NEURON mod impl at 0.02ms dt with current pulse (but 0.002 is better)
/channelml/channel_type/status/contributor/name = Padraig Gleeson
/channelml/channel_type/notes = P type Ca current. Based on Roth et al's reimplementation of original GENESIS model in NEURON
/channelml/channel_type/authorList/modelAuthor[1]/name = De Schutter, E.
/channelml/channel_type/authorList/modelAuthor[2]/name = Bower, J.
/channelml/channel_type/authorList/modelTranslator[1]/name = Padraig Gleeson
/channelml/channel_type/authorList/modelTranslator[1]/institution = UCL
/channelml/channel_type/authorList/modelTranslator[1]/email = p.gleeson - at - ucl.ac.uk
/channelml/channel_type/authorList/modelTranslator[2]/name = Jenny Davie
/channelml/channel_type/authorList/modelTranslator[2]/institution = UCL
/channelml/channel_type/authorList/modelTranslator[2]/comment = Conversion of GENESIS model to NEURON
/channelml/channel_type/authorList/modelTranslator[3]/name = Arnd Roth
/channelml/channel_type/authorList/modelTranslator[3]/institution = UCL
/channelml/channel_type/authorList/modelTranslator[3]/comment = Conversion of GENESIS model to NEURON
/channelml/channel_type/authorList/modelTranslator[4]/name = Volker Steuber
/channelml/channel_type/authorList/modelTranslator[4]/institution = UCL
/channelml/channel_type/authorList/modelTranslator[4]/comment = Conversion of GENESIS model to NEURON
/channelml/channel_type/authorList/modelTranslator[5]/name = Michael Hausser
/channelml/channel_type/authorList/modelTranslator[5]/institution = UCL
/channelml/channel_type/authorList/modelTranslator[5]/comment = Conversion of GENESIS model to NEURON
/channelml/channel_type/publication/fullTitle = De Schutter, E., and Bower, J. M. (1994). An active membrane model of the cerebellar Purkinje cell. I. Simulation of current clamps in slice. J Neurop ...
/channelml/channel_type/publication/pubmedRef = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=7512629
/channelml/channel_type/neuronDBref/modelName = Calcium channels
/channelml/channel_type/neuronDBref/uri = http://senselab.med.yale.edu/senselab/NeuronDB/channelGene2.htm#table1
/channelml/channel_type/current_voltage_relation/ohmic/@ion = ca
/channelml/channel_type/current_voltage_relation/ohmic/conductance/@default_gmax = 4.5
/channelml/channel_type/current_voltage_relation/ohmic/conductance/rate_adjustments/q10_settings/@q10_factor = 3
/channelml/channel_type/current_voltage_relation/ohmic/conductance/rate_adjustments/q10_settings/@experimental_temp = 37
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[1]/@power = 1
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[1]/state/@name = m
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[1]/state/@fraction = 1
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[2]/@power = 1
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[2]/state/@name = h
/channelml/channel_type/current_voltage_relation/ohmic/conductance/gate[2]/state/@fraction = 1
/channelml/channel_type/hh_gate[1]/@state = m
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/@type = sigmoid
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/@expr = A/(1 + exp(k*(v-d)))
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[1]/@name = A
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[1]/@value = 8.5
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[2]/@name = k
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[2]/@value = -0.08
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[3]/@name = d
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/alpha/parameterised_hh/parameter[3]/@value = 8
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/@type = sigmoid
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/@expr = A/(1 + exp(k*(v-d)))
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[1]/@name = A
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[1]/@value = 35
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[2]/@name = k
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[2]/@value = 0.0689655
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[3]/@name = d
/channelml/channel_type/hh_gate[1]/transition/voltage_gate/beta/parameterised_hh/parameter[3]/@value = -74
/channelml/channel_type/hh_gate[2]/@state = h
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/@type = sigmoid
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/@expr = A/(1 + exp(k*(v-d)))
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[1]/@name = A
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[1]/@value = 0.0015
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[2]/@name = k
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[2]/@value = 0.125
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[3]/@name = d
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/alpha/parameterised_hh/parameter[3]/@value = -29
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/@type = sigmoid
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/@expr = A/(1 + exp(k*(v-d)))
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[1]/@name = A
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[1]/@value = 0.0055
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[2]/@name = k
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[2]/@value = -0.125
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[3]/@name = d
/channelml/channel_type/hh_gate[2]/transition/voltage_gate/beta/parameterised_hh/parameter[3]/@value = -23
/channelml/channel_type/impl_prefs/table_settings/@max_v = 150
/channelml/channel_type/impl_prefs/table_settings/@min_v = -100
/channelml/channel_type/impl_prefs/table_settings/@table_divisions = 250
// File from which this was generated: /Users/hashmup/nC_projects/PurkinjeCell.ncx/cellMechanisms/CaP/CaP_Chan.xml
// XSL file with mapping to simulator: /Users/hashmup/nC_projects/PurkinjeCell.ncx/cellMechanisms/CaP/ChannelML_v1.8.1_NEURONmod.xsl
ENDCOMMENT
? This is a NEURON mod file generated from a ChannelML file
? Unit system of original ChannelML file: Physiological Units
COMMENT
ChannelML file containing a single Channel from De Schutter and Bower 1998
ENDCOMMENT
TITLE Channel: CaP
COMMENT
P type Ca current. Based on Roth et al's reimplementation of original GENESIS model in NEURON
ENDCOMMENT
UNITS {
(mA) = (milliamp)
(mV) = (millivolt)
(S) = (siemens)
(um) = (micrometer)
(molar) = (1/liter)
(mM) = (millimolar)
(l) = (liter)
}
NEURON {
SUFFIX CaP
USEION ca READ eca WRITE ica VALENCE 2 ? reversal potential of ion is read, outgoing current is written
RANGE gmax, gion
RANGE minf, mtau
RANGE hinf, htau
}
PARAMETER {
gmax = 0.0045 (S/cm2) ? default value, should be overwritten when conductance placed on cell
}
ASSIGNED {
v (mV)
celsius (degC)
? Reversal potential of ca
eca (mV)
? The outward flow of ion: ca calculated by rate equations...
ica (mA/cm2)
gion (S/cm2)
minf
mtau (ms)
hinf
htau (ms)
}
BREAKPOINT {
SOLVE states METHOD cnexp
gion = gmax*((1*m)^1)*((1*h)^1)
ica = gion*(v - eca)
}
INITIAL {
eca = 137.52625
rates(v)
m = minf
h = hinf
}
STATE {
m
h
}
DERIVATIVE states {
rates(v)
m' = (minf - m)/mtau
h' = (hinf - h)/htau
}
PROCEDURE rates(v(mV)) {
? Note: not all of these may be used, depending on the form of rate equations
LOCAL alpha, beta, tau, inf, gamma, zeta, temp_adj_m, A_alpha_m, k_alpha_m, d_alpha_m, A_beta_m, k_beta_m, d_beta_m, temp_adj_h, A_alpha_h, k_alpha_h, d_alpha_h, A_beta_h, k_beta_h, d_beta_h
TABLE minf, mtau,hinf, htau
DEPEND celsius
FROM -100 TO 150 WITH 250
UNITSOFF
? There is a Q10 factor which will alter the tau of the gates
temp_adj_m = 3^((celsius - 37)/10)
temp_adj_h = 3^((celsius - 37)/10)
? *** Adding rate equations for gate: m ***
? Found a parameterised form of rate equation for alpha, using expression: A / (1 + exp(k*(v-d)))
A_alpha_m = 8.5
k_alpha_m = -0.08
d_alpha_m = 8
alpha = A_alpha_m / (exp((v - d_alpha_m) * k_alpha_m) + 1)
? Found a parameterised form of rate equation for beta, using expression: A / (1 + exp(k*(v-d)))
A_beta_m = 35
k_beta_m = 0.0689655
d_beta_m = -74
beta = A_beta_m / (exp((v - d_beta_m) * k_beta_m) + 1)
mtau = 1/(temp_adj_m*(alpha + beta))
minf = alpha/(alpha + beta)
? *** Finished rate equations for gate: m ***
? *** Adding rate equations for gate: h ***
? Found a parameterised form of rate equation for alpha, using expression: A / (1 + exp(k*(v-d)))
A_alpha_h = 0.0015
k_alpha_h = 0.125
d_alpha_h = -29
alpha = A_alpha_h / (exp((v - d_alpha_h) * k_alpha_h) + 1)
? Found a parameterised form of rate equation for beta, using expression: A / (1 + exp(k*(v-d)))
A_beta_h = 0.0055
k_beta_h = -0.125
d_beta_h = -23
beta = A_beta_h / (exp((v - d_beta_h) * k_beta_h) + 1)
htau = 1/(temp_adj_h*(alpha + beta))
hinf = alpha/(alpha + beta)
? *** Finished rate equations for gate: h ***
}
UNITSON